Variant report

Variant	rs2075802
Chromosome Location	chr19:51507020-51507021
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10420303	0.96[CEU][hapmap];0.90[GIH][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1061368	0.80[ASN][1000 genomes]
rs12981039	0.81[ASN][1000 genomes]
rs1532901	0.90[CEU][hapmap];0.87[JPT][hapmap]
rs1654520	0.96[CEU][hapmap]
rs1654521	0.92[CEU][hapmap]
rs1654539	0.96[CEU][hapmap];0.87[JPT][hapmap]
rs1654542	0.92[CEU][hapmap];0.87[JPT][hapmap]
rs1654543	0.96[CEU][hapmap];0.82[GIH][hapmap];0.87[JPT][hapmap];0.82[MEX][hapmap]
rs1654558	0.87[JPT][hapmap]
rs1654559	0.87[JPT][hapmap]
rs1698	0.90[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap]
rs1701915	0.96[CEU][hapmap]
rs1701916	0.87[JPT][hapmap]
rs1701921	0.87[JPT][hapmap]
rs1701946	0.84[CEU][hapmap]
rs1701947	0.92[CEU][hapmap]
rs1722550	0.81[CEU][hapmap];0.85[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs1722560	0.96[CEU][hapmap]
rs1829971	0.93[ASN][1000 genomes]
rs2075696	0.84[ASN][1000 genomes]
rs2222554	0.90[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs2569440	0.89[ASN][1000 genomes]
rs2569441	0.85[GIH][hapmap]
rs2569443	0.90[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs2569456	0.85[CHB][hapmap];0.97[CHD][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs2569478	0.92[CEU][hapmap];0.90[GIH][hapmap];0.85[TSI][hapmap];0.80[EUR][1000 genomes]
rs2659095	0.85[CHB][hapmap];0.97[CHD][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs2659096	0.85[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs268894	0.96[CEU][hapmap]
rs268898	0.92[CEU][hapmap]
rs2691257	0.87[CHB][hapmap];0.83[ASN][1000 genomes]
rs2739429	0.90[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs6509509	0.88[CEU][hapmap];0.85[CHB][hapmap];0.97[CHD][hapmap];0.82[GIH][hapmap];0.88[JPT][hapmap];0.82[MEX][hapmap];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs906190	0.87[JPT][hapmap]
rs952108	0.96[CEU][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs952109	0.96[CEU][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1058277	chr19:51488544-51509847	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv912291	chr19:51505725-51537682	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2075802	LILRA1	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:51506000-51507200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr19:51506000-51509200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr19:51506000-51509600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr19:51506200-51509600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr19:51506200-51509600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr19:51506400-51507200	Enhancers	K562	blood
7	chr19:51506400-51509400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr19:51506400-51509400	Weak transcription	HMEC	breast
9	chr19:51506400-51509600	Weak transcription	NHEK	skin

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